issues
search
HKU-BAL
/
Clair3
Clair3 - Symphonizing pileup and full-alignment for high-performance long-read variant calling
247
stars
27
forks
source link
issues
Newest
Newest
Most commented
Recently updated
Oldest
Least commented
Least recently updated
Optimized Dockerfile for improved speed
#247
fo40225
closed
10 months ago
2
Does Clair3 normalize?
#246
ghost
closed
1 year ago
2
threads setting issue with SGE cluster
#245
tinyfallen
closed
1 year ago
4
An idea to reduce FPs for calls near the end of homopolymer
#244
ymcki
closed
11 months ago
2
Why doesn't clair3_c_impl.sh have step 5?
#243
oranges7
closed
1 year ago
2
Request to make the samtools mpileup --max-depth variable user defined
#242
mbdabrowska1
closed
12 months ago
3
Allele frequency sum above 1
#241
mbdabrowska1
closed
11 months ago
6
SNP missing
#240
HJArdin
closed
1 year ago
2
TBI errors; support for CSI?
#239
bcantarel
closed
11 months ago
3
Clair3 gives a large number of false negatives (amplicon sequencing on minION)
#238
jamesa47
closed
1 year ago
8
do different aligner affect NGS-based SNP calling?
#237
tinyfallen
closed
1 year ago
4
Large difference in results between running in conda environment and running in Singularity/Docker container.
#236
Samvkes
closed
1 year ago
2
Unable to Lower Mapping Quality Filter
#235
mproberts99
closed
1 year ago
1
How did you establish a threshold of 2?
#234
ghost
closed
1 year ago
2
Format error, unexpected "N" at line 1
#233
LauraSkak
closed
1 year ago
1
Consensus sequence from Clair3 output
#232
gchevignon
closed
1 year ago
1
Unnecessary warning when phasing is disabled
#231
mbhall88
closed
11 months ago
1
Issue with Tensorflow in Clair3 v1.0.4 install with Conda env: import tensorflow as tf ModuleNotFoundError: No module named 'tensorflow'
#230
nbertholdpgc
closed
1 year ago
1
Variants not reported in merge_output. Why?
#229
SkabbiVML
closed
1 year ago
4
vcf pileup file not created
#228
rongiergaetan
closed
1 year ago
1
Issue with conda installation
#227
martabaragli
closed
1 year ago
1
Can I concatenate ONT reads base-called with different models for SNP calling?
#226
weishwu
closed
1 year ago
2
[ERROR] No full-alignment output for file with Docker Dockerfile
#225
littleisland8
closed
11 months ago
6
Question Using Clair3 in Plasmodium
#224
sachiwije
closed
1 year ago
4
run terminates, core files produced after 4 min
#223
jpdna
closed
1 year ago
1
The output DP is lower than the mapping coverage
#222
ErminZ
closed
1 year ago
4
[WARNING] Threads setting exceeds maximum available threads 1, set threads=1
#221
darbrob
closed
1 year ago
3
Excessive GT ./. in GVCF output
#220
eiwai81
closed
11 months ago
16
Clair3 silently ignores read errors
#219
oneillkza
closed
1 year ago
1
Numpy error in Bioconda install
#218
fidibidi
closed
1 year ago
1
Polyploid variant calling
#217
EmilioKolo
closed
1 year ago
1
Missing variants in one contig
#216
mproberts99
closed
1 year ago
3
Inconsistency between Clair3 output and IGV
#215
keremozdel
closed
1 year ago
5
Resume Clair3
#214
trmacfarlane
closed
1 year ago
0
Questions with no vcf file out put
#213
masterzhen119
closed
1 year ago
1
Question on snp_min_af
#212
ghost
closed
1 year ago
12
clair3 installation
#211
Ligerd5
closed
1 year ago
4
MAF minor variants
#210
ghost
closed
1 year ago
2
Clair3 1.0.4 from bioconda does not write out INFO/END header
#209
holtgrewe
closed
1 year ago
2
Idea why Clair3 doesn't call this SNP
#208
ghost
closed
1 year ago
8
a few queries
#207
prasundutta87
closed
1 year ago
2
Odd ref base?
#206
Phillip-a-richmond
closed
1 year ago
1
Why genotype of "0/0" is called
#205
yzhang-github-pub
closed
1 year ago
1
Issue with phasing on r10 ONT model
#204
santoshe1
closed
1 year ago
5
Clair3 doesn't work with hs38DH.fa because HLA contigs contain colons
#203
ymcki
closed
1 year ago
2
Diploid calls on X - is there a way to get haploid calls in male samples?
#202
bartcharbon
closed
1 year ago
1
Update full_alignment_training_r1.md
#201
sujunhao
closed
1 year ago
0
Sometimes a newline is missing between the gvcf lines
#200
bartcharbon
closed
1 year ago
5
Conda prefix not found
#199
nhhaidee
closed
1 year ago
1
FULL_ALN_FILE_*': No such file or directory
#198
nhhaidee
closed
1 year ago
12
Previous
Next